Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 164 of 318
Found at i:50682469 original size:40 final size:40
Alignment explanation
Indices: 50682412--50682602 Score: 231
Period size: 40 Copynumber: 4.8 Consensus size: 40
50682402 ATTGAATGAT
* * ** * *
50682412 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAA
* * * * *
50682452 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTAATTAA
**
50682492 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAA
**
50682532 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAA
50682572 ATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCA
50682603 CGTGGTTATA
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.02
40 129 0.96
41 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAA
Found at i:50685764 original size:26 final size:25
Alignment explanation
Indices: 50685722--50685797 Score: 64
Period size: 28 Copynumber: 2.9 Consensus size: 25
50685712 TCTTATCCCT
*
50685722 ATTTTACCC-CTAGTAAAATTTTGACG
1 ATTTTACCCTCGA-TAAAATTTTGA-G
*
50685748 ATTTTACCCTCGATAAAAAATTTTGAT
1 ATTTTACCCTCGAT--AAAATTTTGAG
* *
50685775 AGTTTTACCCTTGGTAAAATTTT
1 A-TTTTACCCTCGATAAAATTTT
50685798 ATAAAAATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 18 0.43
27 3 0.07
28 21 0.50
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (25 bp):
ATTTTACCCTCGATAAAATTTTGAG
Found at i:50685960 original size:12 final size:12
Alignment explanation
Indices: 50685943--50685984 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
50685933 TGCAAATGAA
*
50685943 TCATTTCTATTT
1 TCATTTCCATTT
50685955 TCATTTCCATTT
1 TCATTTCCATTT
* *
50685967 CCATTTCCATTA
1 TCATTTCCATTT
50685979 TCATTT
1 TCATTT
50685985 TGAAAACATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:50685983 original size:18 final size:18
Alignment explanation
Indices: 50685942--50685984 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
50685932 TTGCAAATGA
* *
50685942 ATCATTTCTATTTTCATT
1 ATCATTTCCATTTCCATT
50685960 -TCCATTTCCATTTCCATT
1 AT-CATTTCCATTTCCATT
50685978 ATCATTT
1 ATCATTT
50685985 TGAAAACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (18 bp):
ATCATTTCCATTTCCATT
Found at i:50688736 original size:80 final size:80
Alignment explanation
Indices: 50688652--50688800 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
50688642 TATGGTAACC
* * * *
50688652 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
50688716 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
50688732 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
50688797 CCGG
66 CCGG
50688801 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:50688742 original size:40 final size:38
Alignment explanation
Indices: 50688693--50688800 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
50688683 ATCACGATTT
*
50688693 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
50688733 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
50688773 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
50688801 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:50693175 original size:40 final size:40
Alignment explanation
Indices: 50693130--50693296 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
50693120 CGGAATATAA
50693130 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
50693170 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
50693210 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50693250 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
50693289 CCGGATAT
1 CCGGATAT
50693297 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50701175 original size:40 final size:40
Alignment explanation
Indices: 50701130--50701296 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
50701120 CGGAATATAA
50701130 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
50701170 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
50701210 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50701250 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
50701289 CCGGATAT
1 CCGGATAT
50701297 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50706600 original size:39 final size:39
Alignment explanation
Indices: 50706557--50706633 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
50706547 GTTACAGTAT
50706557 AGGGATGTTATATTAACTGTTAGAGTATTAATCAATTAG
1 AGGGATGTTATATTAACTGTTAGAGTATTAATCAATTAG
*
50706596 AGGGATGTTATATTAAGTGTTAGAGTATTAATCAATTA
1 AGGGATGTTATATTAACTGTTAGAGTATTAATCAATTA
50706634 TATGTTAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.39
Consensus pattern (39 bp):
AGGGATGTTATATTAACTGTTAGAGTATTAATCAATTAG
Found at i:50709105 original size:17 final size:17
Alignment explanation
Indices: 50709083--50709116 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
50709073 CTATAGAACG
50709083 TAGTTGAGAAAACAACT
1 TAGTTGAGAAAACAACT
50709100 TAGTTGAGAAAACAACT
1 TAGTTGAGAAAACAACT
50709117 AAAATGGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (17 bp):
TAGTTGAGAAAACAACT
Found at i:50715695 original size:46 final size:46
Alignment explanation
Indices: 50715645--50715817 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
50715635 TGGTTGAGCA
* *
50715645 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
50715691 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
50715738 TCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGCATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
50715784 -CCTGAGCTCATTGAGTTGAGTGCGAGTTCACTTA
1 TCC-GAACTCATTGAGTTGAGTCCGAGTTCACTTA
50715818 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.56
47 27 0.26
48 3 0.03
50 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:50716079 original size:19 final size:20
Alignment explanation
Indices: 50716042--50716079 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50716032 ATAAGGTGGT
50716042 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
50716062 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
50716080 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:50717484 original size:27 final size:27
Alignment explanation
Indices: 50717454--50717507 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
50717444 CTATGTGAAT
*
50717454 CTGTAGGCTAGTATTACTAAAATACCC
1 CTGTAGGCTAGAATTACTAAAATACCC
* *
50717481 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGCTAGAATTACTAAAATACCC
50717508 TTGGTTTACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (27 bp):
CTGTAGGCTAGAATTACTAAAATACCC
Found at i:50717522 original size:27 final size:27
Alignment explanation
Indices: 50717500--50717556 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
50717490 AGAATTACTG
50717500 AAATACC-CTTGGTTTACAAAATTACCA
1 AAATACCTC-TGGTTTACAAAATTACCA
**
50717527 AAATACCTCTGGTTTGTAAAATTACCA
1 AAATACCTCTGGTTTACAAAATTACCA
50717554 AAA
1 AAA
50717557 CACCCTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATACCTCTGGTTTACAAAATTACCA
Found at i:50717596 original size:27 final size:26
Alignment explanation
Indices: 50717539--50717781 Score: 204
Period size: 27 Copynumber: 9.1 Consensus size: 26
50717529 ATACCTCTGG
* * * * *
50717539 TTTGTAAAATTACCAAAACACCCTGA
1 TTTGTGAAATTATCGAAATACCCTAA
50717565 TTTGTGAAATTATCGAAATACCACTAA
1 TTTGTGAAATTATCGAAATACC-CTAA
*
50717592 TTTGTGAAATTATCGAAATACCCCTGA
1 TTTGTGAAATTATCGAAATA-CCCTAA
*
50717619 TTTGTGAAATTA-CTGAAATACCCCTGA
1 TTTGTGAAATTATC-GAAATA-CCCTAA
* *
50717646 TTTGTGAAATTATCAAAATGCCCTCAA
1 TTTGTGAAATTATCGAAATACCCT-AA
* * *
50717673 CTTGTAAAATTATCGAAATACCCTCGA
1 TTTGTGAAATTATCGAAATACCCT-AA
* * * *
50717700 TTTTTAAAATTACCAAAATACCCTTAA
1 TTTGTGAAATTATCGAAATACCC-TAA
** * *
50717727 TTTGAAAAATTACCGAAATATCCTTAA
1 TTTGTGAAATTATCGAAATA-CCCTAA
50717754 TTTG-GAAATTA-CAGAAATACCCTAA
1 TTTGTGAAATTATC-GAAATACCCTAA
50717779 TTT
1 TTT
50717782 ACAAAATTAC
Statistics
Matches: 184, Mismatches: 25, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
25 9 0.05
26 35 0.19
27 134 0.73
28 6 0.03
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (26 bp):
TTTGTGAAATTATCGAAATACCCTAA
Found at i:50717738 original size:81 final size:81
Alignment explanation
Indices: 50717517--50717723 Score: 260
Period size: 81 Copynumber: 2.6 Consensus size: 81
50717507 CTTGGTTTAC
* * * * *
50717517 AAAATTACCAAAATA-CCTCTGGTTTGTAAAATTACCAAAACACCCTGATTTGTGAAATTATCGA
1 AAAATTATCGAAATACCCTCTGATTTGTAAAATTACCAAAATACCCTGATTTGTGAAATTATCAA
*
50717581 AATACCACTAATTTGT
66 AATACCACTAACTTGT
* * **
50717597 GAAATTATCGAAATACCC-CTGATTTGTGAAATTACTGAAATACCCCTGATTTGTGAAATTATCA
1 AAAATTATCGAAATACCCTCTGATTTGTAAAATTACCAAAATA-CCCTGATTTGTGAAATTATCA
*
50717661 AAATGCC-CTCAACTTGT
65 AAATACCACT-AACTTGT
*
50717678 AAAATTATCGAAATACCCTC-GATTTTTAAAATTACCAAAATACCCT
1 AAAATTATCGAAATACCCTCTGATTTGTAAAATTACCAAAATACCCT
50717724 TAATTTGAAA
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
80 37 0.35
81 69 0.64
82 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (81 bp):
AAAATTATCGAAATACCCTCTGATTTGTAAAATTACCAAAATACCCTGATTTGTGAAATTATCAA
AATACCACTAACTTGT
Found at i:50717770 original size:26 final size:26
Alignment explanation
Indices: 50717705--50717836 Score: 108
Period size: 27 Copynumber: 5.0 Consensus size: 26
50717695 CTCGATTTTT
50717705 AAAATTACCA-AAATACCCTTAATTTGA
1 AAAATTA-CAGAAATA-CCTTAATTTGA
*
50717732 AAAATTACCGAAATATCCTTAATTTG-
1 AAAATTACAGAAATA-CCTTAATTTGA
* *
50717758 GAAATTACAGAAATACCCTAATTT-A
1 AAAATTACAGAAATACCTTAATTTGA
* **
50717783 CAAAATTACAAAAATACCATTGGTTTGA
1 -AAAATTACAGAAATACC-TTAATTTGA
* * *
50717811 AAATTTACCGAAATACCCTTAGTTTG
1 AAAATTACAGAAATA-CCTTAATTTG
50717837 TAGATTTACC
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
25 8 0.09
26 29 0.34
27 45 0.53
28 3 0.04
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (26 bp):
AAAATTACAGAAATACCTTAATTTGA
Found at i:50717798 original size:79 final size:80
Alignment explanation
Indices: 50717571--50717836 Score: 207
Period size: 81 Copynumber: 3.3 Consensus size: 80
50717561 CTGATTTGTG
* * *** **
50717571 AAATTATCGAAATACCAC-TAATTTGTGAAATTATCGAAATACCC-CTGATTTGTGAAATTACTG
1 AAATTACCGAAATACC-CTTAATTTG-GAAATTATCGAAATACCCTC-AATTTACAAAATTACAA
** * **
50717634 AAATACCCCTGATTTGTG
63 AAATACCATTAATTTGAA
* * * * * * * ** *
50717652 AAATTATCAAAATGCCCTCAACTTGTAAAATTATCGAAATACCCTCGATTTTTAAAATTACCAAA
1 AAATTACCGAAATACCCTTAATTTG-GAAATTATCGAAATACCCTCAATTTACAAAATTACAAAA
*
50717717 ATACCCTTAATTTGAA
65 ATACCATTAATTTGAA
*
50717733 AAATTACCGAAATATCCTTAATTTGGAAATTA-CAGAAATACCCT-AATTTACAAAATTACAAAA
1 AAATTACCGAAATACCCTTAATTTGGAAATTATC-GAAATACCCTCAATTTACAAAATTACAAAA
**
50717796 ATACCATTGGTTTGAA
65 ATACCATTAATTTGAA
* *
50717812 AATTTACCGAAATACCCTTAGTTTG
1 AAATTACCGAAATACCCTTAATTTG
50717837 TAGATTTACC
Statistics
Matches: 152, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
79 51 0.34
80 17 0.11
81 83 0.55
82 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (80 bp):
AAATTACCGAAATACCCTTAATTTGGAAATTATCGAAATACCCTCAATTTACAAAATTACAAAAA
TACCATTAATTTGAA
Found at i:50722895 original size:40 final size:40
Alignment explanation
Indices: 50722851--50723044 Score: 327
Period size: 40 Copynumber: 4.9 Consensus size: 40
50722841 GATATAGCTT
*
50722851 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
50722891 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
50722931 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
50722971 CTCGCACAAATGCCTTCGGGACTTAGCTCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
50723011 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
50723045 CAATCCGAAT
Statistics
Matches: 145, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 12 0.08
40 133 0.92
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:50722976 original size:80 final size:80
Alignment explanation
Indices: 50722825--50723044 Score: 331
Period size: 80 Copynumber: 2.8 Consensus size: 80
50722815 AAACCAAGTA
* * *
50722825 CCTTCGGG-TTTAG-CCGGATATAGCT-TCTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
50722887 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* * *
50722903 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
50722968 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
50722983 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
50723045 CAATCCGAAT
Statistics
Matches: 128, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
78 8 0.06
79 18 0.14
80 102 0.80
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:50725902 original size:40 final size:40
Alignment explanation
Indices: 50725858--50726043 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
50725848 GCTACTCGTT
* * *
50725858 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
50725898 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
50725938 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
50725978 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
50726019 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50726044 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:50729600 original size:29 final size:29
Alignment explanation
Indices: 50729561--50729640 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
50729551 CTTAATAATC
*
50729561 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
50729591 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
50729620 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
50729641 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:50737394 original size:2 final size:2
Alignment explanation
Indices: 50737387--50737416 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
50737377 ATTGATGAAA
50737387 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50737417 GTGGGTTCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50744551 original size:2 final size:2
Alignment explanation
Indices: 50744544--50744570 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50744534 TTGATAGAAA
50744544 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
50744571 GTGGGTTCGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50744640 original size:29 final size:29
Alignment explanation
Indices: 50744601--50744680 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
50744591 CTTAATAATC
*
50744601 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
50744631 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
50744660 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
50744681 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:50746199 original size:2 final size:2
Alignment explanation
Indices: 50746192--50746221 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
50746182 ATGTGCAAAC
50746192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50746222 GTGCAAGAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50747401 original size:256 final size:254
Alignment explanation
Indices: 50746948--50747454 Score: 711
Period size: 256 Copynumber: 2.0 Consensus size: 254
50746938 GGGGGGAAAT
* * * *
50746948 TTGACATGCAAGTCCTCCCTTTTGATTACATGCACTATTAGGTCCTTATAGATTAGCCTATCACA
1 TTGACATGCAAGTCCACCCTTTTGATTACATGCACTAATAGATCCTTATAGATGAGCCTATCACA
* * *
50747013 TTTCAAAAGTGTCACACAAGTCCTAATAACTGAATTCACATGCAATCGACTAAATTGAAGCTTGA
66 TTTCAAAAGTGTCACACAAGTCCTAATAACTAAATTCACATGCAATCGACTAAATCGAAGCTTAA
* * *
50747078 AATTTTCACACATTCATAATTACATATTCTAGACAATAAATATTACGTTCAAACATTTCGGTGAC
131 AACTTTCACACATTCATAATTACATATTCTAGACAATAAATATTACATTCAAAAATTTCGGTGAC
*
50747143 TCGGTTTAGCGGTCCCGAAACCAC-TTCCAGACTAGGGTCAATTTTGGGCTGTCACAAAA
196 TCGGTTTAGCGGTCCCGAAACCACTTTCC-GACTAGGGTCAATTTAGGGCTGTCACAAAA
*
50747202 TTGACATGCAAGTCCACCCTTTTGATCT-CATGCACTAATAGATCCTTATAGATCGA-CTTATCA
1 TTGACATGCAAGTCCACCCTTTTGAT-TACATGCACTAATAGATCCTTATAGAT-GAGCCTATCA
* * *
50747265 CATTTCAAAAGTGTCACACATAAGTCCTATTAGCTAAATTCACATGCAATTGACTAAATCGAAGC
64 CATTTCAAAAGTGTCACAC--AAGTCCTAATAACTAAATTCACATGCAATCGACTAAATCGAAGC
* *
50747330 TTAAAACTTTCACACATTCAT-ATTCACATATTTTAGACAAT-AATCATTATATTCAAATAATTT
127 TTAAAACTTTCACACATTCATAATT-ACATATTCTAGACAATAAAT-ATTACATTCAAA-AATTT
* * * *
50747393 -GGTGACTCGGTTTAGCGGTCTCGAAATCGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACA
189 CGGTGACTCGGTTTAGCGGTCCCGAAACCACTTTCCGACTAGGGTCAATTTAGGGCTGTCACA
50747455 CCACGTCTGG
Statistics
Matches: 224, Mismatches: 21, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
254 73 0.33
255 8 0.04
256 135 0.60
257 8 0.04
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (254 bp):
TTGACATGCAAGTCCACCCTTTTGATTACATGCACTAATAGATCCTTATAGATGAGCCTATCACA
TTTCAAAAGTGTCACACAAGTCCTAATAACTAAATTCACATGCAATCGACTAAATCGAAGCTTAA
AACTTTCACACATTCATAATTACATATTCTAGACAATAAATATTACATTCAAAAATTTCGGTGAC
TCGGTTTAGCGGTCCCGAAACCACTTTCCGACTAGGGTCAATTTAGGGCTGTCACAAAA
Found at i:50753465 original size:30 final size:31
Alignment explanation
Indices: 50753431--50753512 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 31
50753421 AAATGTTTAT
50753431 AAATTTTTGAAAATTTTAATTAA-TTCCTAA
1 AAATTTTTGAAAATTTTAATTAACTTCCTAA
*
50753461 AAATTTTTGAACATTTCT-ATTAAGCTTCCTAA
1 AAATTTTTGAAAATTT-TAATTAA-CTTCCTAA
**
50753493 ATTTTTTTGAAAATTTTAAT
1 AAATTTTTGAAAATTTTAAT
50753513 AGAACCCTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
30 20 0.45
31 2 0.05
32 22 0.50
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.49
Consensus pattern (31 bp):
AAATTTTTGAAAATTTTAATTAACTTCCTAA
Found at i:50754981 original size:179 final size:169
Alignment explanation
Indices: 50754678--50755021 Score: 449
Period size: 179 Copynumber: 2.0 Consensus size: 169
50754668 TTAAATATAC
* * * *
50754678 ATTTGGCTGCTGAATTTGCACTTTCTCCCAAGTTAGATGCTTTTTTTCTAACTTGGTATCTAGGT
1 ATTTGGCTACTGAATTTGCACTTTCTCCCAAGTTAGATACTTTTTTTCCAACTTGGTATCTAGAT
50754743 TAGTGGTACTTTTTTACAACTACAGTAATGACGAGACAAGTGGTATTGATAGAGTTGTTTTAGTT
66 TAGTGGTACTTTTTTACAACTACAGTAATGACGAGACAAGT-GTATTGATAGAGTTGTTTT-G--
* *
50754808 TTAGATGAGGTGTGTATTTATTTATAATTAGTGTAAAAATAATTAT
127 ---GATGAAGTGTGTATTTAGTTATAATTAGTGTAAAAATAATTAT
*
50754854 ATTTGGCTACTGAATTTGCACTTTCTCCCAAGTTAGATACTTTTTTTTTTCCAACTTGGTATCTT
1 ATTTGGCTACTGAATTTGCACTTTCTCCCAAGTTAGATAC---TTTTTTTCCAACTTGGTATCTA
* * *
50754919 GATTAGTGGTACTTTTTTACAAC-ACCATTAATGACGAGACATTAGT-TATTGTTAGGGTTGTTT
63 GATTAGTGGTACTTTTTTACAACTA-CAGTAATGACGAGACA--AGTGTATTGATAGAGTTGTTT
* *
50754982 TGGATGAATTGTGTATTTAGTTATAGTTAGTGTAAAAATA
125 TGGATGAAGTGTGTATTTAGTTATAATTAGTGTAAAAATA
50755022 GTAGTGACGG
Statistics
Matches: 150, Mismatches: 12, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
173 34 0.23
176 38 0.25
178 2 0.01
179 73 0.49
181 3 0.02
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (169 bp):
ATTTGGCTACTGAATTTGCACTTTCTCCCAAGTTAGATACTTTTTTTCCAACTTGGTATCTAGAT
TAGTGGTACTTTTTTACAACTACAGTAATGACGAGACAAGTGTATTGATAGAGTTGTTTTGGATG
AAGTGTGTATTTAGTTATAATTAGTGTAAAAATAATTAT
Found at i:50757124 original size:41 final size:42
Alignment explanation
Indices: 50757047--50757125 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 42
50757037 GTTCCAAAAA
* **
50757047 ATATTAATAACATTTTAAAAATCATGTAATTTGTAAAAATAT
1 ATATTAATAACATTATAAAAATCATGTAATACGTAAAAATAT
* *
50757089 ATATT-ATAATATTATAAAATTCATGTAATACGTAAAA
1 ATATTAATAACATTATAAAAATCATGTAATACGTAAAA
50757126 GAATTCAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 27 0.84
42 5 0.16
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (42 bp):
ATATTAATAACATTATAAAAATCATGTAATACGTAAAAATAT
Found at i:50757233 original size:15 final size:16
Alignment explanation
Indices: 50757213--50757254 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50757203 TAAAAGGGTG
50757213 TTTTTTTAATAA-TTA
1 TTTTTTTAATAATTTA
50757228 TTTTTTT-ATAATTTA
1 TTTTTTTAATAATTTA
*
50757243 TAATTTTTAATA
1 T-TTTTTTAATA
50757255 GTTTTGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 4 0.17
15 11 0.48
16 5 0.22
17 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTTAATAATTTA
Found at i:50759996 original size:19 final size:20
Alignment explanation
Indices: 50759964--50760005 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
50759954 TTTATGCTTT
*
50759964 AATTGTGTTATTATTTTATG
1 AATTGTGATATTATTTTATG
*
50759984 AATTGTGAT-TTATTTTTTG
1 AATTGTGATATTATTTTATG
50760003 AAT
1 AAT
50760006 GAATTTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (20 bp):
AATTGTGATATTATTTTATG
Found at i:50760197 original size:43 final size:42
Alignment explanation
Indices: 50760100--50760198 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
50760090 GTTGGGATTA
* *
50760100 CATGTAAGACCATATCTGAGATATGGCATCGATATGAGATTT
1 CATGTAAGACCATAGCTGAGATATGGCATCGATATGAGATCT
* * * *
50760142 CGTATAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCT
1 CATGTAAGACCATAGCTGAGATA-TGGCATCGATATGAGATCT
*
50760185 CATGTAAAACCATA
1 CATGTAAGACCATA
50760199 TGTAGGATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 18 0.38
43 29 0.62
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (42 bp):
CATGTAAGACCATAGCTGAGATATGGCATCGATATGAGATCT
Found at i:50760707 original size:24 final size:26
Alignment explanation
Indices: 50760661--50760709 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
50760651 CTTGATTTAT
50760661 ATTATAAAATATTATTTAATTAAAAC
1 ATTATAAAATATTATTTAATTAAAAC
*
50760687 ATTATAAATTA-TA-TTAATTAAAA
1 ATTATAAAATATTATTTAATTAAAA
50760710 TTAAGATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
25 2 0.09
26 10 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
ATTATAAAATATTATTTAATTAAAAC
Found at i:50760720 original size:23 final size:25
Alignment explanation
Indices: 50760668--50760726 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
50760658 TATATTATAA
50760668 AATATTAT-TTAATTAAAACATTAT
1 AATATTATATTAATTAAAACATTAT
50760692 AA-ATTATATTAATT-AAA-ATTA-
1 AATATTATATTAATTAAAACATTAT
50760713 AGATATTATATTAA
1 A-ATATTATATTAA
50760727 AGGAAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 5 0.16
23 18 0.56
24 8 0.25
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
AATATTATATTAATTAAAACATTAT
Found at i:50761147 original size:30 final size:30
Alignment explanation
Indices: 50761113--50761181 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
50761103 CTAGCCTTTG
50761113 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
50761143 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
50761173 TCACCACCA
1 CCACCACCA
50761182 CTTGTACCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.49, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:50761675 original size:15 final size:15
Alignment explanation
Indices: 50761655--50761701 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
50761645 TTTTTGTTAT
50761655 TATTATATTTTTTAA
1 TATTATATTTTTTAA
* *
50761670 TATTATATTATAT-A
1 TATTATATTTTTTAA
50761684 TA-TATATTCTTTTAA
1 TATTATATT-TTTTAA
50761699 TAT
1 TAT
50761702 ATTAAGTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
13 6 0.24
14 5 0.20
15 14 0.56
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATATTTTTTAA
Found at i:50761759 original size:25 final size:25
Alignment explanation
Indices: 50761652--50761789 Score: 99
Period size: 23 Copynumber: 5.7 Consensus size: 25
50761642 CTTTTTTTGT
* *
50761652 TATTAT-TATAT-TTTTTAATATTA
1 TATTATGTATATATATTTAATACTA
* ** *
50761675 TATTATATATATATATTCTTTTAATA
1 TATTATGTATATATATT-TAATACTA
* * * *
50761701 TATTAAGTATAT-T-CTAAATTCTA
1 TATTATGTATATATATTTAATACTA
*
50761724 TATTACGTATATATA-TT-ATACTA
1 TATTATGTATATATATTTAATACTA
* *
50761747 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATATTTAATACTA
*
50761772 TATTATTTATATATATTT
1 TATTATGTATATATATTT
50761790 TTTTTCTACA
Statistics
Matches: 87, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
23 37 0.43
24 10 0.11
25 25 0.29
26 15 0.17
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (25 bp):
TATTATGTATATATATTTAATACTA
Found at i:50761781 original size:29 final size:28
Alignment explanation
Indices: 50761748--50761857 Score: 88
Period size: 29 Copynumber: 4.0 Consensus size: 28
50761738 ATTATACTAT
50761748 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* * ** *
50761777 TTTATATATATTTTTTTTCTAC-ATGTTA
1 TTTATGTATA-TATTTTAATACTATATTA
50761805 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
50761832 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
50761857 T
1 T
50761858 GTACATATTT
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 9 0.14
26 7 0.11
27 6 0.09
28 12 0.19
29 23 0.36
30 2 0.03
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:50761858 original size:25 final size:24
Alignment explanation
Indices: 50761808--50761870 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
50761798 CATGTTATCT
*
50761808 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
50761834 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
50761859 TACATATTTTTT
1 TATGTATTTTTT
50761871 TCATACATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:50761949 original size:25 final size:24
Alignment explanation
Indices: 50761921--50761976 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
50761911 GTTATATTTT
*
50761921 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
50761946 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
50761969 CACTATTA
1 CACTATTA
50761977 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:50763087 original size:141 final size:145
Alignment explanation
Indices: 50762880--50763148 Score: 334
Period size: 143 Copynumber: 1.9 Consensus size: 145
50762870 ACTAATTAAA
* * * * * *
50762880 TAATTATATTAGGAGATTTTTTTATTAGTAAATAAATTAAAAGTATGACAATTGTATGGTATTGA
1 TAATTATATTAGAAGATTTTTTTATGAGTAAATAAATTAAAAGAAAGACAAGTGGATGGTATTGA
* * * * *
50762945 TATTGCACAAATGTACAAAA-A-TATATGTGTACAATTGTAGTATTTGTACTTGT-TATTAAAAT
66 TAATACACAAATGTA-AAAATATTATAAGTGTACAATTGTAATATATGTACTTGTGTATTAAAAT
50763007 AAATTATAATTTATAT
130 AAATTATAATTTATAT
*
50763023 TAATTATATTATAAGATTTTTTTATGA-TAAATAAA-TAAAAGAAAGACAAGTGGATGGTCA-TG
1 TAATTATATTAGAAGATTTTTTTATGAGTAAATAAATTAAAAGAAAGACAAGTGGATGGT-ATTG
* * *
50763085 ATAATATACAAATGTAAAAATATTTATAAGTGTACATTTGTAATATATGTATTTGTGTATTAAA
65 ATAATACACAAATGTAAAAATA-TTATAAGTGTACAATTGTAATATATGTACTTGTGTATTAAA
50763149 TACATATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
140 4 0.04
141 35 0.33
142 9 0.08
143 51 0.48
144 7 0.07
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.41
Consensus pattern (145 bp):
TAATTATATTAGAAGATTTTTTTATGAGTAAATAAATTAAAAGAAAGACAAGTGGATGGTATTGA
TAATACACAAATGTAAAAATATTATAAGTGTACAATTGTAATATATGTACTTGTGTATTAAAATA
AATTATAATTTATAT
Found at i:50763377 original size:20 final size:21
Alignment explanation
Indices: 50763344--50763387 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
50763334 ATAAAATAAT
* *
50763344 AAACAAAAGTAAAATAAAAAG
1 AAACAAAAGCAAAAGAAAAAG
*
50763365 AAAC-AAAGCAAAAGAAATAG
1 AAACAAAAGCAAAAGAAAAAG
50763385 AAA
1 AAA
50763388 AGAAAGAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.75, C:0.07, G:0.11, T:0.07
Consensus pattern (21 bp):
AAACAAAAGCAAAAGAAAAAG
Found at i:50776853 original size:30 final size:30
Alignment explanation
Indices: 50776817--50776883 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
50776807 GTGCTAGGCT
50776817 ATGTCCTCCACACGGATGAGACACA-GGACC
1 ATGTCCTCCACACGGATGAGACACATGG-CC
*
50776847 ATGTCCTCCACACGGCTGAGACACATGGCC
1 ATGTCCTCCACACGGATGAGACACATGGCC
50776877 ATG-CCTC
1 ATGTCCTC
50776884 TACCCGTGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 4 0.11
30 29 0.83
31 2 0.06
ACGTcount: A:0.25, C:0.36, G:0.22, T:0.16
Consensus pattern (30 bp):
ATGTCCTCCACACGGATGAGACACATGGCC
Found at i:50776964 original size:43 final size:42
Alignment explanation
Indices: 50776903--50776989 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 42
50776893 AGCCAACACT
*
50776903 TAGGCTATTTTCCAAGCCTTATGTTGTCTTTAATTCTCTCTCA
1 TAGGCTATTTTCCAAGCCTTATGTTGTCCTT-ATTCTCTCTCA
50776946 TAGGCTATTTTCCAAGCCTTATGTTGTCCTTATTCTCTCTCA
1 TAGGCTATTTTCCAAGCCTTATGTTGTCCTTATTCTCTCTCA
50776988 TA
1 TA
50776990 CTTATACACA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 13 0.30
43 30 0.70
ACGTcount: A:0.18, C:0.24, G:0.11, T:0.46
Consensus pattern (42 bp):
TAGGCTATTTTCCAAGCCTTATGTTGTCCTTATTCTCTCTCA
Found at i:50778047 original size:180 final size:180
Alignment explanation
Indices: 50777740--50778079 Score: 484
Period size: 180 Copynumber: 1.9 Consensus size: 180
50777730 TAAGATTTGT
* * * * *
50777740 TAATTTTCTCTGAAACTAGACTCATATATTTTCTTACCATAAAATTTTCAGAATTTTTGGTCCAG
1 TAATTTTCCCAGAAACTAGACTCACATATATTCTTACAATAAAATTTTCAGAATTTTTGGTCCAG
* *
50777805 CCAATAAGTACAGTTTATTCACTAAAGTTATCCCTATTTCATTGTCTGACAATTCCGACCTCTCT
66 CCAATAAGTACAGTTTATTCACTAAAGATATCCCTATTTCACTGTCTGACAATTCCGACCTCTCT
*
50777870 TCAGTAAAAATTATTTATCTCATGGTACAGGACTTCAAATTGAGAACCGC
131 TCACTAAAAATTATTTATCTCATGGTACAGGACTTCAAATTGAGAACCGC
* ** *
50777920 TAATTTTCCCAGAAACTAGACTCACATATATTCTTACAATAAAATTTTCATAATTTTTGGTTTAT
1 TAATTTTCCCAGAAACTAGACTCACATATATTCTTACAATAAAATTTTCAGAATTTTTGGTCCAG
* * * * * * *
50777985 CCAATTAGTATATTTTATTCATTAAAGATA-CCTCTGTTTCACTGTCTGACAGTTCTGACCTCTC
66 CCAATAAGTACAGTTTATTCACTAAAGATATCC-CTATTTCACTGTCTGACAATTCCGACCTCTC
*
50778049 TTTACTAAAAATTATTTATCTCATGGTACAG
130 TTCACTAAAAATTATTTATCTCATGGTACAG
50778080 CTCTTGTATG
Statistics
Matches: 139, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
179 2 0.01
180 137 0.99
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.39
Consensus pattern (180 bp):
TAATTTTCCCAGAAACTAGACTCACATATATTCTTACAATAAAATTTTCAGAATTTTTGGTCCAG
CCAATAAGTACAGTTTATTCACTAAAGATATCCCTATTTCACTGTCTGACAATTCCGACCTCTCT
TCACTAAAAATTATTTATCTCATGGTACAGGACTTCAAATTGAGAACCGC
Found at i:50778701 original size:50 final size:50
Alignment explanation
Indices: 50778636--50778979 Score: 300
Period size: 50 Copynumber: 6.9 Consensus size: 50
50778626 ACCGAAGCTC
* * * *
50778636 TCTGGTACGCATAGTAGCCTGCAATTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * * * * *
50778686 TTTGGTACATGTAGTAGCTTGCACTTAGTACCACATACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
** ** *
50778736 TCTGACACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * * *
50778788 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACACATGACTTAATC-A
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-ATCAA
* * ** *
50778837 TCTGATACACGTAGTAG-CTGCATTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* ** * * * **
50778888 -CGGGTATGCATAGTAGCCTACACTTAGTACTACACATGCAACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
50778937 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
50778980 TCACAATGGA
Statistics
Matches: 222, Mismatches: 63, Indels: 18
0.73 0.21 0.06
Matches are distributed among these distances:
49 27 0.12
50 136 0.61
51 58 0.26
52 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:50778812 original size:101 final size:101
Alignment explanation
Indices: 50778697--50778978 Score: 404
Period size: 100 Copynumber: 2.8 Consensus size: 101
50778687 TTGGTACATG
* * * *
50778697 TAGTAGCTTGCACTTAGTACCACATACGTGACTTAACCATCTGACACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTT
50778762 AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
66 AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
* * *
50778798 TAGTAGCCTGCACTTAGTACTACACACATGACTTAATCATCTGATACACGTAGTAG-CTGCATTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTT
* *
50778862 AGTACTACACACGTGATCGAAGTTAACGGGTATGCA
66 AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
* * ** * * * *
50778898 TAGTAGCCTACACTTAGTACTACACATGCAACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTT
50778963 AGTACTACACACGTGA
66 AGTACTACACACGTGA
50778979 CTCACAATGG
Statistics
Matches: 160, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
100 87 0.54
101 73 0.46
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
Found at i:50779356 original size:19 final size:20
Alignment explanation
Indices: 50779328--50779374 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
50779318 AAGAACATGT
50779328 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
50779349 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
50779368 TATATAT
1 TATATAT
50779375 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:50779565 original size:34 final size:34
Alignment explanation
Indices: 50779522--50779586 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
50779512 CCCGAATCTT
50779522 ATTTTCCTTAATCCATAATACCACATTTAGCAAG
1 ATTTTCCTTAATCCATAATACCACATTTAGCAAG
50779556 ATTTTCCTTAATCCATAATACCACATTTAGC
1 ATTTTCCTTAATCCATAATACCACATTTAGC
50779587 TTACTAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.37
Consensus pattern (34 bp):
ATTTTCCTTAATCCATAATACCACATTTAGCAAG
Found at i:50779745 original size:21 final size:20
Alignment explanation
Indices: 50779721--50779766 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 20
50779711 ATTTCCTTGT
50779721 ATTTTAAGCCTAGTTGAATC
1 ATTTTAAGCCTAGTTGAATC
50779741 AATTTTAAGCCTAGTTGAATC
1 -ATTTTAAGCCTAGTTGAATC
50779762 ATTTT
1 ATTTT
50779767 CATAACTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (20 bp):
ATTTTAAGCCTAGTTGAATC
Found at i:50785624 original size:26 final size:26
Alignment explanation
Indices: 50785574--50785625 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
50785564 CCTAATCAAT
* *
50785574 GGCTCTTCGTGAACTTCCCGTTTAAA
1 GGCTCTTCATGAACTTCCCGATTAAA
* *
50785600 GGCTCTTCATGAGCTTCCTGATTAAA
1 GGCTCTTCATGAACTTCCCGATTAAA
50785626 AGTTTTATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (26 bp):
GGCTCTTCATGAACTTCCCGATTAAA
Found at i:50785713 original size:23 final size:22
Alignment explanation
Indices: 50785687--50785745 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 22
50785677 ATAGCCCGGA
50785687 TAAGCTTCCTAATAGGCTCTTTG
1 TAAGCTTCCTAATA-GCTCTTTG
50785710 TAAGCTTCCTGATTAATAGCTCTTTG
1 TAAGCTTCC----TAATAGCTCTTTG
*
50785736 TGAGCTTCCT
1 TAAGCTTCCT
50785746 GTTATATGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
22 1 0.03
23 9 0.29
26 16 0.52
27 5 0.16
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (22 bp):
TAAGCTTCCTAATAGCTCTTTG
Found at i:50785741 original size:26 final size:27
Alignment explanation
Indices: 50785696--50785746 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
50785686 ATAAGCTTCC
50785696 TAATAGGCTCTTTGTAAGCTTCCTGAT
1 TAATAGGCTCTTTGTAAGCTTCCTGAT
*
50785723 TAATA-GCTCTTTGTGAGCTTCCTG
1 TAATAGGCTCTTTGTAAGCTTCCTG
50785747 TTATATGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (27 bp):
TAATAGGCTCTTTGTAAGCTTCCTGAT
Found at i:50785953 original size:23 final size:24
Alignment explanation
Indices: 50785910--50785961 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
50785900 CCTAAAATAC
50785910 ATGAAAAATGATGATACATGACAT
1 ATGAAAAATGATGATACATGACAT
* *
50785934 ATGAAAATATGA-GAT-GATGATAT
1 ATGAAAA-ATGATGATACATGACAT
50785957 ATGAA
1 ATGAA
50785962 CGTGGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 10 0.40
25 4 0.16
ACGTcount: A:0.50, C:0.04, G:0.19, T:0.27
Consensus pattern (24 bp):
ATGAAAAATGATGATACATGACAT
Found at i:50790255 original size:20 final size:22
Alignment explanation
Indices: 50790230--50790270 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
50790220 AGTTATTTTT
50790230 ATTATTT-TAAAT-ATAAAATA
1 ATTATTTCTAAATCATAAAATA
*
50790250 ATTATTTCTATATCATAAAAT
1 ATTATTTCTAAATCATAAAAT
50790271 TAAAATTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTATTTCTAAATCATAAAATA
Found at i:50791199 original size:27 final size:26
Alignment explanation
Indices: 50791151--50791202 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
50791141 TTAACATTTT
*
50791151 TAAAATCTTTTTTTTACCACTTCGAC
1 TAAAATCTTTTTTTTACAACTTCGAC
* *
50791177 TAAAATTTTTTTTTATATAACTTCGA
1 TAAAATCTTTTTTT-TACAACTTCGA
50791203 AACAGCATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (26 bp):
TAAAATCTTTTTTTTACAACTTCGAC
Found at i:50796148 original size:12 final size:11
Alignment explanation
Indices: 50796115--50796147 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
50796105 TTTGGGTCAA
*
50796115 AAAAGAATTTT
1 AAAATAATTTT
50796126 AAAATAATTTT
1 AAAATAATTTT
50796137 AAAATAATTTT
1 AAAATAATTTT
50796148 TATTAGCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:50801655 original size:49 final size:49
Alignment explanation
Indices: 50801534--50801773 Score: 376
Period size: 49 Copynumber: 4.9 Consensus size: 49
50801524 GTATGAGATG
*
50801534 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TA
50801585 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
50801634 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
50801681 TATATATGTGATAAGGCCTAATGGCCGATGTGATTAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
50801730 TATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
50801774 CATATGTGTG
Statistics
Matches: 176, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
47 42 0.24
49 88 0.50
51 46 0.26
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:50801713 original size:96 final size:99
Alignment explanation
Indices: 50801534--50801773 Score: 378
Period size: 96 Copynumber: 2.4 Consensus size: 99
50801524 GTATGAGATG
*
50801534 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG-GTATATATATATGTGATAA
50801599 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
65 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
50801634 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA-G-A-GTATATATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGGTATATATATATGTGATAAG
* * *
50801696 GCCTAATGGCCGATGTGATTAATGTGAAGGTGTA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
50801730 TATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
50801774 CATATGTGTG
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
96 87 0.66
97 1 0.01
98 1 0.01
100 42 0.32
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.30
Consensus pattern (99 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGGTATATATATATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:50801827 original size:48 final size:48
Alignment explanation
Indices: 50801765--50801916 Score: 268
Period size: 48 Copynumber: 3.2 Consensus size: 48
50801755 CGATGCGATG
*
50801765 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
50801813 AATTTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
50801861 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGCCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
50801909 AATGTGAA
1 AATGTGAA
50801917 TGTTGTAACA
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 99 1.00
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:50802010 original size:37 final size:37
Alignment explanation
Indices: 50801956--50802046 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
50801946 AACTTGGAAA
*
50801956 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
50801994 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
50802031 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
50802047 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:50812715 original size:40 final size:40
Alignment explanation
Indices: 50812668--50812850 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
50812658 CTCACACAAG
* *
50812668 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
50812708 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
50812748 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
50812788 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
50812828 GCCTTCGGGACTTAG-CCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
50812851 CATTCGAATA
Statistics
Matches: 127, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 9 0.07
40 117 0.92
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:50817357 original size:27 final size:28
Alignment explanation
Indices: 50817327--50817396 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
50817317 ATAGTGAATC
*
50817327 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
50817354 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
50817382 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50817397 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:50817468 original size:42 final size:42
Alignment explanation
Indices: 50817404--50817510 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
50817394 GCTGTACAAT
* *
50817404 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
50817446 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
50817488 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
50817511 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:50819765 original size:28 final size:28
Alignment explanation
Indices: 50819733--50819831 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
50819723 GCAATAAGCC
*
50819733 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
50819761 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
50819789 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
50819818 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50819832 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:50827427 original size:28 final size:28
Alignment explanation
Indices: 50827395--50827493 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
50827385 GCAATAAGCC
*
50827395 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
50827423 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
50827451 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
50827480 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50827494 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:50830234 original size:28 final size:28
Alignment explanation
Indices: 50830202--50830300 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
50830192 TGCATAAGCC
*
50830202 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
50830230 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
50830258 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
50830287 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50830301 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:50837898 original size:28 final size:28
Alignment explanation
Indices: 50837866--50837964 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
50837856 GCAATAAGCC
*
50837866 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
50837894 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
50837922 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
50837951 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50837965 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:50841309 original size:12 final size:12
Alignment explanation
Indices: 50841292--50841321 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
50841282 CCTTGGAGTT
50841292 CCAGATTAAGTC
1 CCAGATTAAGTC
50841304 CCAGATTAAGTC
1 CCAGATTAAGTC
50841316 CC-GATT
1 CCAGATT
50841322 CTATTCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (12 bp):
CCAGATTAAGTC
Found at i:50845256 original size:42 final size:43
Alignment explanation
Indices: 50845149--50845259 Score: 170
Period size: 43 Copynumber: 2.6 Consensus size: 43
50845139 CCGGTATTAC
*
50845149 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
**
50845192 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
* *
50845235 GCCT-CTAGGTACAAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
50845260 TAATACCAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
42 19 0.30
43 44 0.70
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
Found at i:50845308 original size:38 final size:38
Alignment explanation
Indices: 50845252--50845375 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
50845242 GGTACAAAGG
* * * *
50845252 CCCGAATATAATACCAGCACTAGGCCTGCAGGTTTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGTTTTAA
* *
50845290 CCCGGATATAATACCAGCACGAAGCCTGCAGGATATAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGTTTTAA
* ** *
50845328 GCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGT-TTTAA
50845367 GCCCGGATA
1 -CCCGGATA
50845376 CACATCAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 60 0.85
39 4 0.06
40 7 0.10
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGTTTTAA
Found at i:50848920 original size:31 final size:29
Alignment explanation
Indices: 50848856--50848924 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
50848846 ACAATAACGT
* *
50848856 AAGTGACTAAAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACATTACAAACAA
50848885 AAGTGACTAAAATGTAAC-TTGAGACAAACAA
1 AAGTGACTAAAATGTAACATT---ACAAACAA
50848916 AAGTGACTA
1 AAGTGACTA
50848925 TTTTAGTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 18 0.51
31 15 0.43
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.23
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATTACAAACAA
Found at i:50855344 original size:22 final size:22
Alignment explanation
Indices: 50855316--50855358 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
50855306 CATTATATAA
50855316 CCTGTGATAGTGTGATAAATCT
1 CCTGTGATAGTGTGATAAATCT
50855338 CCTGTGATAGTGTGATAAATC
1 CCTGTGATAGTGTGATAAATC
50855359 CTGACTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (22 bp):
CCTGTGATAGTGTGATAAATCT
Found at i:50860387 original size:53 final size:53
Alignment explanation
Indices: 50860307--50860415 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
50860297 ATTTGCAGAC
* *
50860307 TAGTTTCTAGAGGACAAATTGATATTTTTCCAAAATCAGATTTATATGTGCCT
1 TAGTTTCCAGAGGACAAATTGATATTTTGCCAAAATCAGATTTATATGTGCCT
*
50860360 TAGTTTCCAGAGGACAAATTGATATTTTGCCAAAATCAGATTTATATGTGGCT
1 TAGTTTCCAGAGGACAAATTGATATTTTGCCAAAATCAGATTTATATGTGCCT
50860413 TAG
1 TAG
50860416 CCACCAGAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (53 bp):
TAGTTTCCAGAGGACAAATTGATATTTTGCCAAAATCAGATTTATATGTGCCT
Found at i:50860576 original size:20 final size:20
Alignment explanation
Indices: 50860535--50860578 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
50860525 TTATATTTAG
* *
50860535 ATCATATTCAAATTAAATAT
1 ATCATACTCAAATTAAAGAT
50860555 ATCATACTC-AATTAACAGAT
1 ATCATACTCAAATTAA-AGAT
50860575 ATCA
1 ATCA
50860579 CAATGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (20 bp):
ATCATACTCAAATTAAAGAT
Found at i:50864676 original size:29 final size:29
Alignment explanation
Indices: 50864634--50864716 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
50864624 TTATTTTTTT
50864634 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
50864663 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
50864692 TTTCCAGCACGCACACTTAGTGCCA
1 TTTCCAGCATGCACACTTAGTGCCA
50864717 ATCTCGTCAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:50872576 original size:29 final size:29
Alignment explanation
Indices: 50872534--50872615 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
50872524 TTATTTTTTT
50872534 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
50872563 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
50872592 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
50872616 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:50880871 original size:46 final size:46
Alignment explanation
Indices: 50880821--50880943 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 46
50880811 GTAGCCGAAA
*
50880821 CATGTCCCAAACATGTCTTACACTAGCT-TACGTCTCCAGGCCAATG
1 CATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTCAAGGCCAATG
** * *
50880867 CATGTTACAAACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAAGGCCAATG
* *
50880913 CATGTCCCAGACATGTCTTACACTGGCTCTC
1 CATGTCCCAAACATGTCTTACACTAGCTCTC
50880944 ATAATGTGGA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
46 66 0.99
47 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.28
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAAGGCCAATG
Found at i:50886870 original size:27 final size:26
Alignment explanation
Indices: 50886822--50886873 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
50886812 CCGAGGCTGC
*
50886822 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
50886848 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
50886874 TTGCAACGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:50890980 original size:7 final size:7
Alignment explanation
Indices: 50890968--50890996 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
50890958 TATTAATCAA
50890968 AATAAAT
1 AATAAAT
50890975 AATAAAT
1 AATAAAT
50890982 AATAAAT
1 AATAAAT
50890989 AATAAAT
1 AATAAAT
50890996 A
1 A
50890997 TTATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAAAT
Found at i:50891199 original size:15 final size:17
Alignment explanation
Indices: 50891178--50891216 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
50891168 CTTTATATTT
*
50891178 TTAATAATTTGATT-AA
1 TTAATAATTTAATTCAA
50891194 -TAATAATTTAATTCAA
1 TTAATAATTTAATTCAA
50891210 TTAATAA
1 TTAATAA
50891217 ATGAAGCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 12 0.60
16 2 0.10
17 6 0.30
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
TTAATAATTTAATTCAA
Found at i:50899133 original size:8 final size:8
Alignment explanation
Indices: 50899099--50899141 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
50899089 CAATGATGTG
*
50899099 AATAATAA
1 AATATTAA
50899107 AATATATAA
1 AATAT-TAA
50899116 AATA-TAA
1 AATATTAA
50899123 AATATTAA
1 AATATTAA
*
50899131 AATATCAA
1 AATATTAA
50899139 AAT
1 AAT
50899142 TTAGAATAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.23
8 17 0.55
9 7 0.23
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (8 bp):
AATATTAA
Found at i:50899149 original size:15 final size:15
Alignment explanation
Indices: 50899103--50899141 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
50899093 GATGTGAATA
50899103 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
50899119 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
50899134 ATCAAAAT
1 AT-AAAAT
50899142 TTAGAATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:50899341 original size:25 final size:24
Alignment explanation
Indices: 50899313--50899360 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
50899303 CGTGATAATA
*
50899313 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATA-ATACATAATATAGTG
50899338 TTAAAAATAATACATAATATAGT
1 TTAAAAATAATACATAATATAGT
50899361 TAAGATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (24 bp):
TTAAAAATAATACATAATATAGTG
Found at i:50899351 original size:24 final size:25
Alignment explanation
Indices: 50899313--50899376 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 25
50899303 CGTGATAATA
*
50899313 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAGTG
50899338 TTAAAAATA-ATACATAATATA--G
1 TTAAAAATATATACATAATATAGTG
*
50899360 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
50899377 GATAACATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 5 0.14
22 11 0.31
24 11 0.31
25 9 0.25
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (25 bp):
TTAAAAATATATACATAATATAGTG
Found at i:50899430 original size:25 final size:25
Alignment explanation
Indices: 50899402--50899529 Score: 81
Period size: 25 Copynumber: 5.3 Consensus size: 25
50899392 AAAAATTTAT
50899402 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
50899427 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* *
50899452 ATATATATACGTAATATAGA-ATTTAA-
1 ATATATA-A-ATAATATA-ATATTAAAG
** *
50899478 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
50899500 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
50899523 AAATATA
1 ATATATA
50899530 GTAATAACAA
Statistics
Matches: 79, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.15
23 12 0.15
24 6 0.08
25 33 0.42
26 2 0.03
27 10 0.13
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:50900097 original size:30 final size:30
Alignment explanation
Indices: 50900019--50900153 Score: 157
Period size: 30 Copynumber: 4.5 Consensus size: 30
50900009 TAGGTACAAG
* *
50900019 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
50900049 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
50900079 TGGTGGTGGAAAATGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
50900109 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
50900139 TGGTGGTGGAAAAGG
1 TGGTGGTGGAAAAGG
50900154 CAAAGATTTA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 2 0.02
30 90 0.98
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:50901047 original size:15 final size:15
Alignment explanation
Indices: 50901014--50901061 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
50901004 TTGATTTTTT
* *
50901014 AAAAAGCAGAATTTG
1 AAAAAGCAAAAATTG
*
50901029 -AAAAGCATAAATTG
1 AAAAAGCAAAAATTG
*
50901043 AAAAAACAAAAATTG
1 AAAAAGCAAAAATTG
50901058 AAAA
1 AAAA
50901062 TACCTCAGCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.17
Consensus pattern (15 bp):
AAAAAGCAAAAATTG
Found at i:50901177 original size:89 final size:89
Alignment explanation
Indices: 50901025--50901249 Score: 362
Period size: 89 Copynumber: 2.5 Consensus size: 89
50901015 AAAAGCAGAA
* * * *
50901025 TTTGAAAAGCATAAATTGAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTC
1 TTTGAAGAGCAGAAATTG-AAAAACAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTC
50901090 ACCTCTCGCAACATGAGTTGATTTT
65 ACCTCTCGCAACATGAGTTGATTTT
* *
50901115 TTTGAAGAGCAGAAATTGGAAAGCAGAAATCT-AAAATACCTCAGCGTACCCTGAGGCTCAACTC
1 TTTGAAGAGCAGAAATTGAAAAACAGAAAT-TGAAAATACCTCAGCGTACCCTGAGGCTCAACTC
*
50901179 ACCTCTCGCAATATGAGTTGATTTT
65 ACCTCTCGCAACATGAGTTGATTTT
50901204 TTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCG
1 TTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCG
50901250 AGCCTCAAAA
Statistics
Matches: 124, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
88 1 0.01
89 106 0.85
90 17 0.14
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (89 bp):
TTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCA
CCTCTCGCAACATGAGTTGATTTT
Found at i:50901230 original size:14 final size:14
Alignment explanation
Indices: 50901213--50901239 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50901203 TTTTGAAGAG
50901213 CAGAAATTGAAAAA
1 CAGAAATTGAAAAA
50901227 CAGAAATTGAAAA
1 CAGAAATTGAAAA
50901240 TACCTCAGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
CAGAAATTGAAAAA
Found at i:50901418 original size:212 final size:211
Alignment explanation
Indices: 50901045--50901461 Score: 728
Period size: 212 Copynumber: 2.0 Consensus size: 211
50901035 ATAAATTGAA
50901045 AAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTG
1 AAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTG
* * * *
50901110 ATTTTTTTGAAGAGCAGAAATTGGAAAGCAGAAATCTAAAATACCTCAGCGTACCCTGAGGCTCA
66 ATTTTTTTGAAGAGCAAAAATTGAAAAACAGAAATCTAAAATACCTCAACGTACCCTGAGGCTCA
50901175 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAA
131 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAA
50901240 TACCTCAGCGAGCCTC
196 TACCTCAGCGAGCCTC
* *
50901256 AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTG
* * *
50901321 ATTTTTTTTGAAGAGCAAAAATTGAAAAACATAAAT-TGAAATTACCTCAACGTGCCCTGAGGCT
66 A-TTTTTTTGAAGAGCAAAAATTGAAAAACAGAAATCT-AAAATACCTCAACGTACCCTGAGGCT
50901385 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAGAAATTGAA
129 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAGAAATTGAA
50901450 AATACCTCAGCG
194 AATACCTCAGCG
50901462 CGCCCTAAGG
Statistics
Matches: 195, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
211 65 0.33
212 130 0.67
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (211 bp):
AAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTG
ATTTTTTTGAAGAGCAAAAATTGAAAAACAGAAATCTAAAATACCTCAACGTACCCTGAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAA
TACCTCAGCGAGCCTC
Found at i:50901442 original size:14 final size:14
Alignment explanation
Indices: 50901425--50901451 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50901415 TTTTGAAGAG
50901425 CAGAAATTGAAAAA
1 CAGAAATTGAAAAA
50901439 CAGAAATTGAAAA
1 CAGAAATTGAAAA
50901452 TACCTCAGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
CAGAAATTGAAAAA
Found at i:50901467 original size:89 final size:89
Alignment explanation
Indices: 50901256--50901526 Score: 452
Period size: 89 Copynumber: 3.0 Consensus size: 89
50901246 AGCGAGCCTC
50901256 AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
50901321 ATTTTTTTTGAAGAGCAAAAATTGA
66 A-TTTTTTTGAAGAGCAGAAATTGA
* * *
50901346 AAAACATAAATTGAAATTACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
50901411 ATTTTTTTGAAGAGCAGAAATTGA
66 ATTTTTTTGAAGAGCAGAAATTGA
* * *
50901435 AAAACAGAAATTGAAAATACCTCAGCGCGCCCTAAGGCTTAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
50901500 ATTTTTTTGAAAAACAGAAATTGA
66 ATTTTTTTGAAGAGCAGAAATTGA
50901524 AAA
1 AAA
50901527 TACCTCAGCG
Statistics
Matches: 169, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
89 106 0.63
90 63 0.37
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (89 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTGAAGAGCAGAAATTGA
Found at i:50901533 original size:164 final size:164
Alignment explanation
Indices: 50901342--50901665 Score: 567
Period size: 164 Copynumber: 2.0 Consensus size: 164
50901332 AGAGCAAAAA
* *
50901342 TTGAAAAACATAAATTGAAATTACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
50901407 GTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGCCCTAAGG
66 GTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGCCCTAAGG
*
50901472 CTTAACTCACCTCTCGCAATATGAGTTGATTTTT
131 CTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
50901506 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * *
50901571 GTTGATTTTTTTGAAGAGCAGAAATTGAAAAACATAAATTGAAATTACCTCAGCGTGCCTTGAGG
66 GTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGCCCTAAGG
50901636 CTCAACTCACCTCTCGCAATATGAGTTGAT
131 CTCAACTCACCTCTCGCAATATGAGTTGAT
50901666 CTTTGGAATA
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
164 151 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (164 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGCCCTAAGG
CTCAACTCACCTCTCGCAATATGAGTTGATTTTT
Found at i:50901554 original size:75 final size:75
Alignment explanation
Indices: 50901431--50901601 Score: 297
Period size: 75 Copynumber: 2.3 Consensus size: 75
50901421 AGAGCAGAAA
*
50901431 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGCCCTAAGGCTTAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGCCCTAAGGCTCAACTCACCTCTCGCAATATGA
50901496 GTTGATTTTT
66 GTTGATTTTT
* *
50901506 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGCCCTAAGGCTCAACTCACCTCTCGCAATATGA
50901571 GTTGATTTTT
66 GTTGATTTTT
* *
50901581 TTGAAGAGCAGAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
50901602 ACATAAATTG
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 91 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGCCCTAAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:50909381 original size:40 final size:40
Alignment explanation
Indices: 50909296--50909446 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
50909286 AATTGAATGA
* * *
50909296 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
50909336 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
50909377 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
50909416 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
50909447 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:50909460 original size:40 final size:40
Alignment explanation
Indices: 50909333--50909462 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
50909323 ATGCTGGAAA
* * * *
50909333 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
50909373 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
50909413 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
50909453 TTATATCCGG
1 TTATATCCGG
50909463 TTATGTTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:50913210 original size:12 final size:12
Alignment explanation
Indices: 50913178--50913213 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
50913168 TGGGATATGC
50913178 AATGTATGAATG
1 AATGTATGAATG
**
50913190 AATACATGAATG
1 AATGTATGAATG
50913202 AATGTATGAATG
1 AATGTATGAATG
50913214 TCAAAATGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (12 bp):
AATGTATGAATG
Found at i:50916801 original size:16 final size:15
Alignment explanation
Indices: 50916780--50916827 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
50916770 GATGTGAATA
50916780 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
50916796 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
50916811 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
50916827 A
1 A
50916828 GTAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:50916810 original size:8 final size:8
Alignment explanation
Indices: 50916776--50916827 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
50916766 CAATGATGTG
*
50916776 AATAATAA
1 AATATTAA
50916784 AATATATAA
1 AATAT-TAA
50916793 AATA-TAA
1 AATATTAA
50916800 AATATTAA
1 AATATTAA
*
50916808 AATATCAA
1 AATATTAA
*
50916816 AATATTAG
1 AATATTAA
50916824 AATA
1 AATA
50916828 GTAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:50917045 original size:22 final size:24
Alignment explanation
Indices: 50916982--50917046 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
50916972 CGTGATAATA
*
50916982 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
50917007 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
50917030 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
50917047 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:50917768 original size:30 final size:30
Alignment explanation
Indices: 50917690--50917824 Score: 157
Period size: 30 Copynumber: 4.5 Consensus size: 30
50917680 TAGGTACAAG
* *
50917690 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
50917720 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
50917750 TGGTGGTGGAAAATGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
50917780 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
50917810 TGGTGGTGGAAAAGG
1 TGGTGGTGGAAAAGG
50917825 CAAAGATTTA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 2 0.02
30 90 0.98
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:50919279 original size:24 final size:24
Alignment explanation
Indices: 50919252--50919297 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
50919242 GAATTTAACA
50919252 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
50919276 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
50919298 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:50919375 original size:2 final size:2
Alignment explanation
Indices: 50919368--50919398 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
50919358 TTATAAATGC
*
50919368 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50919399 ATCAATCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50936667 original size:40 final size:39
Alignment explanation
Indices: 50936540--50936669 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
50936530 ATGCTGGAAA
* *
50936540 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
50936580 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
50936620 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
50936660 TTATATCCGG
1 TTATATCCGG
50936670 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:50944731 original size:40 final size:39
Alignment explanation
Indices: 50944604--50944733 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
50944594 ATGCTGGAAA
* *
50944604 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
50944644 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
50944684 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
50944724 TTATATCCGG
1 TTATATCCGG
50944734 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:50953157 original size:25 final size:25
Alignment explanation
Indices: 50953129--50953179 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
50953119 ATCAAACATG
* *
50953129 TTAGTCACGAAAATCTCCATATCAA
1 TTAGTCACAAAAATCTCCAAATCAA
50953154 TTAGTCACAAAAATCTCCAAATCAA
1 TTAGTCACAAAAATCTCCAAATCAA
50953179 T
1 T
50953180 CAAGTAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (25 bp):
TTAGTCACAAAAATCTCCAAATCAA
Found at i:50956228 original size:32 final size:32
Alignment explanation
Indices: 50956171--50956233 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
50956161 CTGATTGCAT
50956171 ACTGTATTGTTACTGTAATGGGCTTAGGCCCC
1 ACTGTATTGTTACTGTAATGGGCTTAGGCCCC
50956203 ACTGATATTGTTACTG-AATGGGCTTAGGCCC
1 ACTG-TATTGTTACTGTAATGGGCTTAGGCCC
50956234 AGATTGCTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (32 bp):
ACTGTATTGTTACTGTAATGGGCTTAGGCCCC
Found at i:50961125 original size:43 final size:42
Alignment explanation
Indices: 50961071--50961194 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
50961061 AGCTCATATA
* *
50961071 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCACATAACG
* * *
50961113 ATGCCACTATCCCAGATAGGGTCTTACACGAAATCA-ATTAACG
1 ATGCCA-TATCCCAGATATGGTCTTACATGTAATCACA-TAACG
* * *
50961156 ATGCCAATGTCCCAGACATAGTCTTACATGTAATCACAT
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAATCACAT
50961195 GTAACACCCC
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
42 7 0.10
43 58 0.87
44 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCACATAACG
Found at i:50984435 original size:40 final size:40
Alignment explanation
Indices: 50984302--50984487 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
50984292 GCTACTCGTT
*
50984302 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
50984342 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
50984382 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
50984422 CGAATGCCTTC-GGATCTTAGTCTGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
50984463 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50984488 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:50991154 original size:80 final size:81
Alignment explanation
Indices: 50991070--50991255 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 81
50991060 GCTACTCGTT
* *
50991070 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-AGATCTTAACCC
* *
50991133 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* * * **
50991150 CAAATGCCTTC-GGATCTTAGTCCGGATTTATTAACTCGCACGAATGCCTTCAGATCTTAGTCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCAGATCTTAACCCG
*
50991214 GATATAGTCACTTAGCA
65 GATATAGTAACTTAGCA
50991231 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50991256 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
79 5 0.06
80 72 0.80
81 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:50991206 original size:40 final size:40
Alignment explanation
Indices: 50991070--50991255 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
50991060 GCTACTCGTT
* *
50991070 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
**
50991110 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
*
50991150 CAAATGCCTTCGGATCTTAGTCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * * * *
50991190 CGAATGCCTTCAGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
50991231 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
50991256 CATCATTCGA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.89
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:50993673 original size:12 final size:11
Alignment explanation
Indices: 50993628--50993682 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 11
50993618 AGATAAATAT
*
50993628 TATTTTATTAA
1 TATTTTATTTA
*
50993639 TATTTTGAATTGA
1 TATTTT--ATTTA
50993652 TA-TTTATTTA
1 TATTTTATTTA
50993662 TATTTATATTTA
1 TATTT-TATTTA
50993674 TATTTTATT
1 TATTTTATT
50993683 AATTTTTACT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 6 0.16
11 12 0.32
12 14 0.37
13 6 0.16
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (11 bp):
TATTTTATTTA
Found at i:50993680 original size:23 final size:23
Alignment explanation
Indices: 50993628--50993690 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
50993618 AGATAAATAT
50993628 TATTTTATTAATATTTTGAATTGA
1 TATTTTATTAATATTTT-AATTGA
* *
50993652 TA-TTTATTTATA-TTTATATTTA
1 TATTTTATTAATATTTTA-ATTGA
50993674 TATTTTATTAAT-TTTTA
1 TATTTTATTAATATTTTA
50993691 CTTAGCATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 1 0.03
22 9 0.27
23 21 0.64
24 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (23 bp):
TATTTTATTAATATTTTAATTGA
Found at i:50994611 original size:29 final size:30
Alignment explanation
Indices: 50994555--50994616 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
50994545 ACTTATTTGA
50994555 TTGTTAATTTTGCTATTATTTTAAAGACAT
1 TTGTTAATTTTGCTATTATTTTAAAGACAT
* *
50994585 TTGTTAATTTT-TTATTATTTTAGAGACAT
1 TTGTTAATTTTGCTATTATTTTAAAGACAT
50994614 TTG
1 TTG
50994617 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGCTATTATTTTAAAGACAT
Found at i:50994770 original size:12 final size:12
Alignment explanation
Indices: 50994740--50994772 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
50994730 TATATATTTT
50994740 AAAATT-ATATA
1 AAAATTAATATA
50994751 AAAA-TAATATA
1 AAAATTAATATA
50994762 AAAATTAATAT
1 AAAATTAATAT
50994773 GGGCGGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:50997661 original size:42 final size:43
Alignment explanation
Indices: 50997557--50997679 Score: 126
Period size: 42 Copynumber: 2.9 Consensus size: 43
50997547 CATATCCCAG
* * * * *
50997557 ATATGCTCTTACATGTTATCACATATCGATGGCAATAG-CTCAG
1 ATATGGTCTTACATGTAATCACATAACGATGCCAAT-GTCTCAA
* * * * *
50997600 CTATGGT-TTACACGAAATCAAATAACGAT-TCAATGTCTCAA
1 ATATGGTCTTACATGTAATCACATAACGATGCCAATGTCTCAA
50997641 ATATGGTCTTACATGTAATCACATAACGATGCCAATGTC
1 ATATGGTCTTACATGTAATCACATAACGATGCCAATGTC
50997680 CCAGACATGG
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
40 1 0.02
41 14 0.22
42 36 0.57
43 12 0.19
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (43 bp):
ATATGGTCTTACATGTAATCACATAACGATGCCAATGTCTCAA
Found at i:50997691 original size:43 final size:43
Alignment explanation
Indices: 50997543--50997691 Score: 119
Period size: 42 Copynumber: 3.5 Consensus size: 43
50997533 AGCTCCTACA
* * * * *
50997543 ATGCC-ATATCCCAGATATGCTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAACG
* * * * *
50997585 ATGGCAATAG-CTCAG-CTATGGT-TTACACGAAATCAAATAACG
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACATGTAATCACATAACG
* * * *
50997627 AT-TCAATGTCTCAAATATGGTCTTACATGTAATCACATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAACG
50997669 ATGCCAATGTCCCAGACATGGTC
1 ATGCCAATGTCCCAGACATGGTC
50997692 GTACGCATAA
Statistics
Matches: 80, Mismatches: 20, Indels: 13
0.71 0.18 0.12
Matches are distributed among these distances:
40 1 0.01
41 13 0.16
42 40 0.50
43 26 0.32
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAACG
Found at i:50999284 original size:14 final size:14
Alignment explanation
Indices: 50999265--50999292 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50999255 CGTAGGTGAA
50999265 GAATTAGATGAATG
1 GAATTAGATGAATG
50999279 GAATTAGATGAATG
1 GAATTAGATGAATG
50999293 TTTTGGTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (14 bp):
GAATTAGATGAATG
Done.